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Comparison of SSR and SNP Markers in Maize Molecular Marker Assisted Background Selection

SONG Wei;ZHAO Jiu-ran;WANG Feng-ge;TIAN Hong-li;GE Jian-rong;WANG Yuan-dong;ZHAO Yan-xin;Maize Research Center, Beijing Academy of Agriculture and Forestry Sciences,Beijing Key Laboratory of Maize DNA Fingerprinting and Molecular Breeding;  
SSR and SNP were used for the molecular marker assisted background selection of H2321/J076/J076 BC1F1 population. Six pairs of polymorphic primers screened between donor and receptor parents from 40 pairsof SSR primers were analyzed in BC1 plants by capillary electrophoresis. The result showed that, proportion of recur-rent parent genome(PRPG) of 157 BC1 plants was from 50% to 100%, only one individual with PRPG 100% and 14 plants with 91.67%. Using Maize SNP3072 microarray analysis, 157 plants could be sorted finely with 104 polymor-phic SNP loci, and PRPG of BC1 plants was from 51.92% to 93.75%. Comparison of SSR and SNP in the back-ground selection showed that the two types of markers were correlative moderately. So a combination of SSR andSNP markers in the backcross early generation was suggested to improve the background selection efficiency, so asto realize large population and strict selection.
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